HilbertVis 1.34.0
Simon Anders
| Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/HilbertVis | | Last Changed Rev: 129126 / Revision: 131943 | | Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |
| veracruz2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings HilbertVis_1.34.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/HilbertVis.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘HilbertVis/DESCRIPTION’ ... OK
* this is package ‘HilbertVis’ version ‘1.34.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘HilbertVis’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
'library' or 'require' call to ‘EBImage’ in package code.
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
makeRandomTestData: no visible global function definition for ‘runif’
makeRandomTestData: no visible global function definition for ‘rgamma’
makeRandomTestData: no visible global function definition for ‘dnorm’
makeRandomTestData: no visible global function definition for ‘rpois’
plotLongVector: no visible global function definition for ‘plot’
plotLongVector: no visible global function definition for ‘segments’
showHilbertImage: no visible global function definition for
‘colorRampPalette’
showHilbertImage: no visible global function definition for ‘col2rgb’
showHilbertImage: no visible global function definition for ‘flip’
showHilbertImage: no visible global function definition for ‘rgbImage’
showHilbertImage: no visible global function definition for ‘Image’
showHilbertImage: no visible global function definition for ‘display’
shrinkRleVector: no visible global function definition for ‘aggregate’
shrinkVector: no visible global function definition for ‘is’
Undefined global functions or variables:
Image aggregate col2rgb colorRampPalette display dnorm flip is plot
rgamma rgbImage rpois runif segments
Consider adding
importFrom("grDevices", "col2rgb", "colorRampPalette")
importFrom("graphics", "plot", "segments")
importFrom("methods", "is")
importFrom("stats", "aggregate", "dnorm", "rgamma", "rpois", "runif")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... NOTE
Package unavailable to check Rd xrefs: ‘HilbertVisGUI’
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for GNU extensions in Makefiles ... OK
* checking compiled code ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 4 NOTEs
See
‘/Users/biocbuild/bbs-3.5-bioc/meat/HilbertVis.Rcheck/00check.log’
for details.
* installing *source* package ‘HilbertVis’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c hilbert.c -o hilbert.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c make_wiggle_vector.c -o make_wiggle_vector.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -Wall -g -O2 -c shrink_vector.c -o shrink_vector.o
shrink_vector.c:76:20: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
if( abs( REAL( vector )[ j ] ) > abs( val ) )
^
shrink_vector.c:76:20: note: use function 'fabs' instead
if( abs( REAL( vector )[ j ] ) > abs( val ) )
^˜˜
fabs
shrink_vector.c:76:49: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
if( abs( REAL( vector )[ j ] ) > abs( val ) )
^
shrink_vector.c:76:49: note: use function 'fabs' instead
if( abs( REAL( vector )[ j ] ) > abs( val ) )
^˜˜
fabs
2 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o HilbertVis.so hilbert.o make_wiggle_vector.o shrink_vector.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.5-bioc/meat/HilbertVis.Rcheck/HilbertVis/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (HilbertVis)